gmod/chado issues and pull requests

#146 - Automated testing for applying migrations in a named schema

Pull Request - State: closed - Opened by laceysanderson 6 months ago - 4 comments
Labels: Tripal, Priority: high

#145 - Using + testing Flyway with Tripal

Issue - State: closed - Opened by laceysanderson 6 months ago
Labels: Tripal

#144 - V1.3.3.013 Add type_id and rank to all contact and project linker tables

Pull Request - State: closed - Opened by laceysanderson 7 months ago - 7 comments
Labels: medium change

#143 - GitHub workflows to help with review

Pull Request - State: closed - Opened by laceysanderson 7 months ago - 4 comments
Labels: Priority: high

#142 - Github Workflows to help with Review

Issue - State: closed - Opened by laceysanderson 7 months ago

#141 - We need more linking tables for the eimage table

Issue - State: open - Opened by dsenalik 7 months ago - 1 comment

#140 - type_id for all linker tables

Issue - State: open - Opened by laceysanderson 7 months ago - 1 comment

#139 - Organism - unique constraint does not work for nullable columns

Issue - State: open - Opened by dsenalik over 1 year ago - 1 comment

#138 - add nd_geolocation_dbxref table

Issue - State: open - Opened by nmenda over 1 year ago

#137 - V1.3.3.010 - Adding a fact table for environmental data

Pull Request - State: open - Opened by laceysanderson almost 2 years ago - 1 comment
Labels: medium change

#136 - Add uncertainty values for geographic coordinates in nd_geolocation

Issue - State: closed - Opened by dsenalik about 2 years ago - 6 comments

#135 - add Stderr column to the phenotype table

Issue - State: closed - Opened by nmenda about 2 years ago - 5 comments
Labels: small change

#134 - problem to load drush_print function

Issue - State: closed - Opened by lmanchon over 2 years ago - 3 comments

#133 - Chado / Drupal compatibility

Issue - State: closed - Opened by lmanchon over 2 years ago - 1 comment

#132 - cvterm table

Issue - State: closed - Opened by lmanchon over 2 years ago - 9 comments
Labels: Help Wanted

#131 - V1.3.3.012 - Add contact_dbxref table

Pull Request - State: open - Opened by Ferrisx4 over 2 years ago
Labels: small change

#130 - Version confusion

Issue - State: open - Opened by spficklin over 2 years ago - 2 comments

#129 - Docker updates

Pull Request - State: closed - Opened by spficklin over 2 years ago - 2 comments
Labels: small change

#128 - Update Docker Image for Flyway

Issue - State: closed - Opened by spficklin over 2 years ago
Labels: PR Submitted, small change

#127 - removing a not-needed 1.41 schema dir

Pull Request - State: closed - Opened by scottcain over 2 years ago - 1 comment
Labels: Approved, small change

#126 - Remove 1.41 schema directory

Issue - State: closed - Opened by scottcain over 2 years ago
Labels: PR Submitted, small change

#125 - Update the Readme

Pull Request - State: closed - Opened by laceysanderson over 2 years ago - 1 comment
Labels: small change

#124 - Normalizing/standardizing data storage (enforcing bestpractices) through PL/pgsql functions

Issue - State: open - Opened by guignonv almost 3 years ago - 2 comments
Labels: Discussion

#123 - Remove other schemas

Issue - State: open - Opened by spficklin almost 3 years ago - 6 comments
Labels: large change

#122 - Add a contact_dbxref table

Issue - State: open - Opened by Ferrisx4 almost 3 years ago - 7 comments
Labels: small change, Ready for PR

#121 - Inconsistency in cvterm table when setting dbxref_id on delete set null

Issue - State: open - Opened by dreyes17 about 3 years ago - 2 comments

#120 - updating the description of the analysis table per https://github.com…

Pull Request - State: closed - Opened by scottcain about 3 years ago
Labels: small change

#119 - 1.4 113 update analysis desc

Pull Request - State: closed - Opened by scottcain about 3 years ago - 1 comment
Labels: small change

#118 - Fixing foreign key for db_relationship type_id

Pull Request - State: closed - Opened by scottcain about 3 years ago - 5 comments
Labels: small change

#117 - db_relationship type_id should be foreign key pointing to cvterm not db table

Issue - State: closed - Opened by dreyes17 almost 4 years ago - 2 comments
Labels: small change

#116 - Loading Refseq and GFF into Chado

Issue - State: open - Opened by akmg6 about 4 years ago - 3 comments

#115 - Error while loading gff file

Issue - State: open - Opened by shmenolin over 4 years ago - 1 comment

#114 - frange schema needed?

Issue - State: open - Opened by spficklin over 4 years ago - 5 comments

#113 - Expand analysis table description

Issue - State: closed - Opened by mestato almost 5 years ago - 1 comment
Labels: small change

#112 - JAVA version in Travis build must be updated

Issue - State: closed - Opened by bradfordcondon over 5 years ago - 3 comments

#111 - Adding is_obsolete to cell_line table (V1.3.3.008)

Pull Request - State: closed - Opened by jogoodma over 5 years ago - 3 comments
Labels: medium change

#110 - Add is_obsolete to cell_line table.

Issue - State: closed - Opened by jogoodma over 5 years ago - 1 comment

#109 - Traceability of the source analysis or project

Issue - State: open - Opened by colthom over 5 years ago

#108 - V1.3.3.010 - Adding a fact table for environmental data

Pull Request - State: closed - Opened by guignonv over 5 years ago - 8 comments
Labels: medium change

#107 - Add a table to store environmental data

Issue - State: open - Opened by guignonv over 5 years ago - 5 comments
Labels: medium change

#106 - PR template

Issue - State: open - Opened by bradfordcondon over 5 years ago

#105 - Fix for search_path issue in #65 (migration V1.3.3.007)

Pull Request - State: closed - Opened by jogoodma over 5 years ago - 2 comments
Labels: Approved, small change

#104 - port 1.31-1.41 diff to flyway migration?

Issue - State: open - Opened by bradfordcondon over 5 years ago

#103 - fix typo in link to schemaspy

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago
Labels: small change

#102 - Contributing to Chado documentation

Issue - State: open - Opened by spficklin over 5 years ago
Labels: small change, documentation

#101 - Build schemaspy documentation continuously and host on RTD

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago - 4 comments
Labels: small change, documentation

#100 - gut non schema files and reorganize

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago - 5 comments
Labels: medium change

#99 - Matrix

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago - 3 comments
Labels: small change

#98 - Matrix

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago

#97 - PR Guidelines (1st stage of governance)

Pull Request - State: closed - Opened by laceysanderson over 5 years ago - 11 comments
Labels: large change

#96 - Migration 1.3.3.001 fails on PostgreSQL 9.4

Issue - State: closed - Opened by laceysanderson over 5 years ago - 3 comments

#95 - 94 flyway guide

Pull Request - State: closed - Opened by bradfordcondon over 5 years ago - 3 comments
Labels: small change

#94 - flyway guide

Issue - State: closed - Opened by bradfordcondon over 5 years ago - 1 comment
Labels: PR Submitted, documentation

#93 - Chado's license is a perl license

Issue - State: open - Opened by bradfordcondon almost 6 years ago - 2 comments

#92 - Best Practices

Pull Request - State: closed - Opened by mestato almost 6 years ago - 6 comments
Labels: medium change

#91 - changes to mage (migration V1.3.3.006)

Pull Request - State: closed - Opened by srobb1 almost 6 years ago - 3 comments
Labels: medium change

#90 - Should modules continue to exist?

Issue - State: closed - Opened by bradfordcondon almost 6 years ago - 6 comments
Labels: Discussion, Approved

#89 - adding type_id to project table (V1.3.3.005)

Pull Request - State: closed - Opened by srobb1 almost 6 years ago - 1 comment
Labels: medium change

#88 - 1.4 project add type id 37

Pull Request - State: closed - Opened by srobb1 almost 6 years ago - 1 comment

#87 - schema spy reports indexes as blanks for functional indexes

Issue - State: open - Opened by bradfordcondon almost 6 years ago
Labels: documentation

#86 - 70 synonym indices (V1.3.3.004)

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago - 2 comments
Labels: Approved, small change

#85 - write migration for uniquename constraint (migration V1.3.3.003)

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago - 1 comment
Labels: medium change

#84 - 40 uniquename constraint

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago

#83 - add db relationship table (migration V1.3.3.002)

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago - 1 comment
Labels: Approved, medium change

#82 - 58 db relationship table

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago

#81 - Flyway stock biomaterial (migration V1.3.3.001) AND add continuous integration running of migrations

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago - 1 comment

#80 - Test env

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago

#79 - Suggestion: separate Chado Schema/Perl into two different repositories

Issue - State: closed - Opened by spficklin almost 6 years ago - 7 comments
Labels: Discussion, 2019 PAG Hackathon, Priority: high, PR Submitted

#78 - stub out read the docs site

Pull Request - State: closed - Opened by bradfordcondon almost 6 years ago - 3 comments
Labels: 2019 PAG Hackathon

#77 - direct way to link analysis and biomaterial?

Issue - State: open - Opened by bradfordcondon almost 6 years ago

#76 - suggested mapping for NCBI databases

Issue - State: open - Opened by bradfordcondon almost 6 years ago - 16 comments

#75 - Annotating a feature with multiple types of cvterms

Issue - State: open - Opened by almasaeed2010 almost 6 years ago - 10 comments

#74 - feature_cvterm vs feature_dbxref vs featureprop for feature annotations

Issue - State: open - Opened by bradfordcondon about 6 years ago - 3 comments

#73 - Term/typedef in feature_property.obo

Issue - State: open - Opened by puethe about 6 years ago - 3 comments
Labels: 2019 PAG Hackathon, Priority: low, Hackathon: easy

#72 - Core goal: Documentation

Issue - State: open - Opened by laceysanderson about 6 years ago - 6 comments
Labels: Discussion, 2019 PAG Hackathon, Priority: high

#71 - associating contact roles with a project?

Issue - State: open - Opened by bradfordcondon about 6 years ago - 7 comments
Labels: Discussion

#70 - Indexes for cvtermsynonym

Issue - State: open - Opened by spficklin about 6 years ago - 1 comment
Labels: Chado 1.4 Suggestion, 2019 PAG Hackathon, Priority: low, Hackathon: easy, PR Submitted

#69 - Broken link in README.md - "INSTALL.Chado"

Issue - State: closed - Opened by demitri about 6 years ago - 1 comment

#68 - Storing vocabulary terms borrowed from other CVs?

Issue - State: open - Opened by spficklin about 6 years ago - 6 comments
Labels: Discussion

#67 - Change a field or a custom table?

Issue - State: closed - Opened by oklonova about 6 years ago - 2 comments

#66 - Issue 65 - search_path issue with binloc functions used for featureloc indices

Pull Request - State: closed - Opened by jogoodma over 6 years ago - 5 comments

#65 - search_path problem with boxrange function

Issue - State: open - Opened by jogoodma over 6 years ago - 10 comments
Labels: 2019 PAG Hackathon, Hackathon: hard, Priority: low

#64 - Core Goal: using modern schema deployment

Issue - State: closed - Opened by bradfordcondon over 6 years ago - 5 comments
Labels: Discussion, 2019 PAG Hackathon, Hackathon: hard, Priority: high

#63 - Core Goal: Defining Contribution Guidelines and Governance

Issue - State: closed - Opened by bradfordcondon over 6 years ago - 5 comments
Labels: Discussion, 2019 PAG Hackathon

#62 - project_phenotype table?

Issue - State: open - Opened by ekcannon over 6 years ago - 5 comments
Labels: Chado 1.4 Suggestion, 2019 PAG Hackathon, Hackathon: hard, Priority: low

#61 - Rewrite readme for chado as markdown

Pull Request - State: closed - Opened by hexylena almost 7 years ago - 1 comment

#60 - Migrated into a separate project

Pull Request - State: closed - Opened by hexylena almost 7 years ago - 2 comments

#59 - organism_analysis linker table

Issue - State: open - Opened by bradfordcondon almost 7 years ago - 21 comments
Labels: Chado 1.4 Suggestion

#58 - Chado CV/DB table challenge

Issue - State: open - Opened by spficklin almost 7 years ago - 14 comments
Labels: Chado 1.4 Suggestion, 2019 PAG Hackathon, Hackathon: easy, Priority: high, PR Submitted

#57 - base table table?

Issue - State: open - Opened by bradfordcondon almost 7 years ago - 3 comments
Labels: Chado 1.4 Suggestion, Tripal, 2019 PAG Hackathon, Priority: low, Hackathon: easy

#56 - Support for display of regions on maps with float coords

Issue - State: open - Opened by ekcannon almost 7 years ago - 2 comments
Labels: Chado 1.4 Suggestion, 2019 PAG Hackathon, Hackathon: hard, Priority: low

#55 - Project stock biomaterial linker tables

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago - 2 comments

#54 - 1.4 bjc prop update 26

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago - 2 comments

#53 - 1.4 bjc prop update 26

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago

#52 - add type_id column to analysis table

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago - 1 comment

#51 - README provided by erasche (Thanks!)

Pull Request - State: closed - Opened by scottcain almost 7 years ago - 5 comments

#50 - MAGE description changes and minor table changes to accomodate next gen sequencing data

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago - 2 comments

#49 - first stab

Pull Request - State: closed - Opened by bradfordcondon almost 7 years ago

#48 - Changes to Chado Installation

Issue - State: open - Opened by spficklin almost 7 years ago - 3 comments
Labels: Chado 1.4 Suggestion

#47 - New Indexes for featureloc feature and feature_relationship

Issue - State: open - Opened by spficklin almost 7 years ago - 5 comments
Labels: Chado 1.4 Suggestion, 2019 PAG Hackathon

GitHub / gmod/chado issues and pull requests